miR-Intess: classification

other hairpins

novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH (207 loci)

block2701739 [novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.001	no	no	0.44/0.44	18/18/0.00	0.0	0.0	2	0	2	0	8	-2	3arm_loop	1	nd	0.28	4	2	2	na	na

		reads	miRBase family seed
seed	---------------------------AAAGGUU------------------	2	novel
		len	cloning frequencies
			T1S2	T2S1
	--------------------------CAAAGGTTTTCACCCTTG--------	18	1	1
rat	ggttttcccatatgaaaactttcggaCAAAGGTTTTCACCCTTGtgggagcc
	****************************************************
	--------------------------------------------------------------	ENSRNOT00000004443 ENSRNOG00000003313 Glra2
	--------------------------------------------------------------	ENSRNOT00000004426 ENSRNOG00000003313 Glra2
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000050478 ENSRNOG00000031000
rat	(((..(((((((((((((((((......))))))))))....))))))))))	1.000 -18.70

rat

chromosome:X:49805599:49805650:-1

Opposite_strand|Intronic_coding|ENSRNOT00000004426|ENSRNOG00000003313 ## Same_strand|Intronic_coding|ENSRNOT00000050478|ENSRNOG00000031000 ## ENSRNOG00000031000|protein_coding|| ## ENSRNOG00000003313|protein_coding|Glra2|Glycine receptor subunit alpha-2 precursor (Glycine receptor strychnine-binding subunit). [Source:UniProtKB/Swiss-Prot;Acc:P22771]

block2922408 [novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.002	no	no	0.50/0.50	18/18/0.00	0.0	0.0	2	0	1	0	5	-2	3arm_loop	1	nd	0.28	4	2	1	na	na

		reads	miRBase family seed
seed	---------------------------CUGGUCC---------------	2	novel
		len	cloning frequencies
			T4S1
	--------------------------TCTGGTCCCCTTCAACAA-----	18	2
rat	atgcctgtctgaagggactggccaggTCTGGTCCCCTTCAACAAaggca
	*************************************************
rat	.(((((...(((((((...(((((....))))))))))))....)))))	1.000 -23.60

rat

chromosome:X:159117715:159117763:-1

intergenic

block2929714 [novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.003	no	no	0.11/0.11	19/19/0.00	0.0	0.0	1	0	1	0	6	-3	5arm_loop	1	nd	0.26	4	1	1	na	na

		reads	miRBase family seed
seed	-------UUUUAAA------------------------------------	1	novel
		len	cloning frequencies
			T1S1
	------TTTTTAAAAATAATTTCCA-------------------------	19	1
rat	gtttatTTTTTAAAAATAATTTCCAattcaagttattttttaaaaataaa
	**************************************************
rat	.(((((((((.(((((((((((.......))))))))))).)))))))))	1.000 -9.70

rat

chromosome:X:3870441:3870490:1

intergenic ## {Repeats: AT_rich 5 21 1 class=Low_complexity,AT_rich 1 21 1 class=Low_complexity}

block2184026 [novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.010	no	no	0.61/0.61	18/18/0.00	0.0	0.0	1	0	1	0	30	-1	3arm	1	nd	0.28	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------------------------------CCGAGUU----------------------------------------	1	novel
		len	cloning frequencies
			T3S2
	--------------------------------------------------GCCGAGTTTCTCCTGGAC------------------------------	18	1
rat	agtattgccctagcttgcttgcggtcacgtggccaaaacttggactttcaGCCGAGTTTCTCCTGGACtagatcgcagcgagatggaggccacgtgct
	**************************************************************************************************
rat	(((((.((((((.(((((.(((((((...((((((((((((((........))))))))....))).))))))))))))))).))).)))...)))))	0.990 -38.60

rat

chromosome:7:11365686:11365783:1

intergenic ## {SimpF: oe = 0.90 1 CpG}

block647671 [novel_lenNOK_loopOverlap_randfoldOK_bulgeHIGH]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.002	no	no	0.50/0.50	18/18/0.00	0.0	0.0	1	0	1	0	10	-1	3arm	1	nd	0.22	4	1	1	na	na

		reads	miRBase family seed
seed	---------------------------UUGUGGA--------------------	1	novel
		len	cloning frequencies
			T3S1
	--------------------------TTTGTGGACTCAAGGTGC----------	18	1
rat	gggcttgggctgggtccacagttggaTTTGTGGACTCAAGGTGCtttttgtccc
	******************************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000019442 ENSRNOG00000014366 SHC3_RAT
rat	((((..(((((((((((((((......)))))))))))....))))...)))).	1.000 -24.70

rat

chromosome:17:19596805:19596858:1

novel_shortStem_loopOverlap (205 loci)

block22717 [novel_shortStem_loopOverlap]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.045	no	no	0.60/0.60	20/20/1.00	0.0	0.0	1	0	1	0	4	-1	3arm	1	nd	0.20	2	1	1	na	na

		reads	miRBase family seed
seed	------------------------------CCCUGUC----------------	1	miR-339
		len	cloning frequencies
			T4S2
	-----------------------------TCCCTGTCGTTTCCCAAGCC----	20	1
rat	aagggcttgctggaatcactggtaaggaaTCCCTGTCGTTTCCCAAGCCtttc
	*****************************************************
	---------------------------------------------------------------	ENSRNOT00000033737 ENSRNOG00000024591 RGD1561262_predicted
rat	(((((((((..(((((.((.((........))..)).))))).))))))))).	1.000 -16.30

rat

chromosome:10:50729074:50729126:-1

block28678 [novel_shortStem_loopOverlap]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.188	no	no	0.45/0.45	20/20/1.00	0.0	0.0	1	0	1	0	3	-2	5arm_loop	1	nd	0.25	3	1	1	na	na

		reads	miRBase family seed
seed	----ACUUUGG-----------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	---TACTTTGGGCAGTGATGACA-----------------------------	20	1
rat	ggaTACTTTGGGCAGTGATGACAagctattaatattggccaaatgtggggct
	****************************************************
rat	...((((((((.(((((.(((.......))).))))).))))).))).....	0.980 -11.30

rat

chromosome:10:63324723:63324774:-1

intergenic

block43721 [novel_shortStem_loopOverlap]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.312	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	0	-3	3arm_loop	1	nd	0.16	2	1	1	na	na

		reads	miRBase family seed
seed	-------------------------------CUCCCUG------------	1	novel
		len	cloning frequencies
			T4S1
	------------------------------TCTCCCTGCGTCTTCTTCTC	20	1
rat	agagagccggaaaacagcagtggccaccgtTCTCCCTGCGTCTTCTTCTC
	**************************************************
rat	.((((...((((.((.((((.((..........)))))))).))))))))	1.000 -11.80

rat

chromosome:10:92128502:92128551:-1

intergenic

block52927 [novel_shortStem_loopOverlap]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.138	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	3	-1	5arm_loop	1	nd	0.25	2	1	1	na	na

		reads	miRBase family seed
seed	----GGCUUAC----------------------------------------------	1	novel
		len	cloning frequencies
			T4S1
	---AGGCTTACAGGCATCTGGCA----------------------------------	20	1
rat	cagAGGCTTACAGGCATCTGGCAgaaactgagtgagaagcctgctcgagttcagctg
	*********************************************************
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000054973 ENSRNOG00000036698 Nploc4
	+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000054972 ENSRNOG00000036698 Nploc4
rat	(((.(((((.(((((.(((.((.........)).))).)))))...)))))...)))	0.890 -17.20

rat

chromosome:10:109830399:109830455:-1

block63151 [novel_shortStem_loopOverlap]

Hairpin parameters
miRNA	randfold	RNA	rep	GC min/max	len min/max/mir_range	5'var	3'var	reads	reads edited	libs	libs edited	base distance	loop distance	position	locations	exon distance	unpaired	max bulge	total reads	total libs	dicer	drosha
no	0.051	no	no	0.55/0.55	20/20/1.00	0.0	0.0	1	0	1	0	0	-2	5arm_loop	1	nd	0.20	3	1	1	na	na

		reads	miRBase family seed
seed	-GAGAAGG--------------------------------------	1	novel
		len	cloning frequencies
			T1S2
	AGAGAAGGCCTGGATGGTAG--------------------------	20	1
rat	AGAGAAGGCCTGGATGGTAGggagggagcgtattcatggctttcct
	**********************************************
	++++++++++++++++++++++++++++++++++++++++++++++++++++++++	ENSRNOT00000009714 ENSRNOG00000007377 Slit3
rat	((.(((((((((((((((.........)).)))))).)))))))))	1.000 -14.00